GgaINT0068410 @ galGal3
Intron Retention
Gene
ENSGALG00000013571 | F1NUN5_CHICK
Description
NA
Coordinates
chr4:63218984-63219838:+
Coord C1 exon
chr4:63218984-63219143
Coord A exon
chr4:63219144-63219728
Coord C2 exon
chr4:63219729-63219838
Length
585 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAT
5' ss Score
6.8
3' ss Seq
CTTTATTCTTTATCACTCAGTGA
3' ss Score
6.27
Exon sequences
Seq C1 exon
CTTGCAGTCCAGATGTCTACGTAGGATTGGATATGCAAGGGGTAAATTATGACGTTAGTGTGGCTGACAGCTATCAACAGTGCCAAAAAAGATGCACCAATGACAAACGCTGTCATTTTTTTACATACGCCCCAGGAACATATCACGATGCAAGCTTTCG
Seq A exon
GTAAATACGTGTTTGATCCCTGTACTTAGATGGTGCTGTGCTTTAGTACAGTCAATCTCAAAATAGTCAGAGGTGAGAGAATTTATTCAAGAAAATGAGTTTTTCTTTGACTAGTTATCCTTGTAATGTTTATTCAAGCTTACAGTTAGGAAAATATCTTCAGTAAGTTAGTTCGATGAGAAAGGCAAGTCGGTTGATGAGAAAGGCAAGCTTGATTATCATAGAACTGAAAACAATTTAAAAGTTCTGGAGATATTGAAATGCAAATTATATTGGCAACTATGCAGCGGCATTGCTCTGTCAAATCTTACTCTGCTTAATGCTTTCAAAATGGCATCATTAATGCAGCCAGGGAAATTCTTTCATTTGTACTTGGACTATTTTTGAGCTGTCAGCTTGCTTGATTTTACAGAATGTTATTCAGTTGTATCCATTCCCTATTTGACAATTTTTCTGGAGGCTGGATGTTGCTCTGGCCCATGAGCAAAGTGGGCACTATGGTAGGACTCATGGAAACAGAAGAATGATGTAGACCAAGGAAGATGGCCTGTTGTCTTACTACTTTCTTTATTCTTTATCACTCAG
Seq C2 exon
TGAAAAATGCTTCTTGAAACATACCAGTTTAGGAACTCCAACCAGCATAAGGGTGCTTGATGAGGTTGTGTCTGGATTCTCCTTAAAGCCATGTCAGCTTTCTGAATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013571:ENSGALT00000037595:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PU(61.9=96.3)
A:
NA
C2:
PF0002421=PAN_1=PD(36.9=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAGTCCAGATGTCTACGT
R:
AGCTGACATGGCTTTAAGGAGA
Band lengths:
258-843
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]